TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv3525c/-:

update plot	correlation	link to info on gene
Rv2061c/-	(cc=0.5587)	info on Rv2061c/-
Rv3572/-	(cc=0.5147)	info on Rv3572/-
Rv1365c/rsfA	(cc=0.4917)	info on Rv1365c/rsfA
Rv1615/-	(cc=0.4581)	info on Rv1615/-
Rv0921/-	(cc=0.451)	info on Rv0921/-
Rv1148c/-	(cc=0.4338)	info on Rv1148c/-
Rv3233c/-	(cc=0.4288)	info on Rv3233c/-
Rv1268c/-	(cc=0.4287)	info on Rv1268c/-
Rv2854/-	(cc=0.4258)	info on Rv2854/-
Rv2313c/-	(cc=0.4252)	info on Rv2313c/-

Correlation of Rv3525c/- with Rv2854/-

Normalized LFCs for Rv3525c/-:
(description and provenance of datasets)

	Rv3525c/-	Rv2854/-
Fe_supp_jason_reseq	-0.846	-0.189
low_pH_jason_reseq	-0.386	-0.485
NO_jason_reseq	-0.69	-0.457
B6_jason_reseq	-0.584	-0.093
MHCII_jason_reseq	-0.066	0.78
Isoniazid02	-2.03	-0.627
Rifampicin4	0.56	0.547
Ethambutol3	-1.992	0.963
Meropenem3	-2.554	-1.072
Vancomycin16	-0.915	0.082
Rv2680_day32	1.002	-0.161
H37Rv_KO_MarP	1.054	-0.443
hypoxia_3wks	0.566	0.447
hypoxia_6wks	0.081	-0.123
glycerol	-0.012	-0.455
cholesterol	-0.776	-0.48
AJ	0.066	0.163
Bibs02	0.584	-0.449
Bibs02c	-0.309	-0.196
BL6	-0.288	0.248
BL6a	0.247	0.0
BXD01	-0.788	-0.168
BXD010	-0.314	0.119
BXD011	-0.197	-0.494
BXD03	0.133	-0.238
BXD04	-0.605	0.326
BXD05	0.323	0.545
BXD06	-0.356	-0.21
BXD07	-0.169	0.097
BXD08	-0.752	0.053
BXD09	-0.208	-0.094
CAST	0.287	-0.976
CCcont	-0.982	-0.561
DS01	0.08	0.094
DS02	-1.144	-0.09
DS04	0.561	0.136
DS0c	-1.021	-0.222
GP01	-1.589	-1.208
GP02	-1.539	-1.538
GP0c	-1.783	-0.616
NOD	-0.093	-0.483
NZO	-0.669	-0.204
PWK	0.213	-0.831
H37Rv_KO_CtpC	-0.284	0.621
H37Rv_KO_CtpD	-1.105	-0.507
H37Rv_KO_Rv1272	-0.589	-0.598
H37Rv_KO_SugABC	-1.767	-0.742
H37Rv_KO_MbtN	0.654	-0.296
Trans05	0.029	-0.417
macrophage_unactivated	0.603	0.732
IL1	-0.555	-0.282
Rapamycin	0.344	0.239
Tcell	0.336	0.075
GMCSF	0.504	-0.349
IFNab	0.732	-0.142
IFNg	0.601	0.62
IFNg_GMCSF1	0.091	0.412
Rv1432_day32	-0.103	-0.196
Rv1565c_day32	-0.074	0.859
secA2_input	-0.809	0.402
delta_Rv3594	0.127	0.052
delta_Rv3717	-0.355	0.793
delta_Rv3811	0.241	1.034
delta_Rv0954	-0.298	1.358
PonA1	-0.089	1.193
EccD1_KO	0.309	0.329
EspI_KO	-1.569	-0.148
PE35_KO	-0.236	-0.312
PPE68_KO	-0.173	0.054
glycerol2	-0.804	-0.652
lignocerate	-1.136	-0.783
oleate	-0.405	0.011
phosphatidylcholine	-0.606	-0.588
acetate	-1.298	-0.716
glucAc	-1.615	-1.548
Rv0950ko	0.09	0.678
Rv1096ko	0.262	0.679
Rv3684ko	-0.167	0.383
delta_otsA_trehalose	-1.098	-2.484